Fri Feb 28 14:50:46 UTC 2025  I: starting to build unifrac/unstable/amd64 on jenkins on '2025-02-28 14:50'
Fri Feb 28 14:50:46 UTC 2025  I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_31/34367/console.log
Fri Feb 28 14:50:46 UTC 2025  I: Downloading source for unstable/unifrac=1.3-4
--2025-02-28 14:50:46--  http://deb.debian.org/debian/pool/main/u/unifrac/unifrac_1.3-4.dsc
Connecting to 46.16.76.132:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 2198 (2.1K) [text/prs.lines.tag]
Saving to: ‘unifrac_1.3-4.dsc’

     0K ..                                                    100%  387M=0s

2025-02-28 14:50:46 (387 MB/s) - ‘unifrac_1.3-4.dsc’ saved [2198/2198]

Fri Feb 28 14:50:46 UTC 2025  I: unifrac_1.3-4.dsc
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512

Format: 3.0 (quilt)
Source: unifrac
Binary: python3-unifrac
Architecture: any
Version: 1.3-4
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Homepage: https://github.com/biocore/unifrac
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/unifrac
Vcs-Git: https://salsa.debian.org/med-team/unifrac.git
Testsuite: autopkgtest-pkg-pybuild
Build-Depends: debhelper-compat (= 13), dh-exec, dh-sequence-python3, python3-all-dev, python3-setuptools, python3-numpy, cython3, libhdf5-dev, hdf5-helpers, python3-h5py, python3-biom-format, python3-skbio (>= 0.6.1) <!nocheck>, python3-iow <!nocheck>, python3-pytest <!nocheck>, libssu-dev (>= 1.4-2~)
Package-List:
 python3-unifrac deb python optional arch=any
Checksums-Sha1:
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 27d85d7bcc7f832130aa08308e480a0183c90597 7788 unifrac_1.3-4.debian.tar.xz
Checksums-Sha256:
 e8cc37c3d5aaa31494c218df8a336eae135049d6840023d057da4fda8c4a4377 65918 unifrac_1.3.orig.tar.gz
 c1d9af94472d48cb50abb4a674097c0f529c4e8e9f163272c01f207118a5e7a8 7788 unifrac_1.3-4.debian.tar.xz
Files:
 5b9f4c8ff4caf738771a7c467ce6e043 65918 unifrac_1.3.orig.tar.gz
 24a5d87829d5112d8cb35d2fadff794e 7788 unifrac_1.3-4.debian.tar.xz

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Fri Feb 28 14:50:46 UTC 2025  I: Checking whether the package is not for us
Fri Feb 28 14:50:46 UTC 2025  I: Starting 1st build on remote node ionos11-amd64.debian.net.
Fri Feb 28 14:50:46 UTC 2025  I: Preparing to do remote build '1' on ionos11-amd64.debian.net.
Fri Feb 28 14:59:17 UTC 2025  I: Deleting $TMPDIR on ionos11-amd64.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Fri Feb 28 02:50:49 -12 2025
I: pbuilder-time-stamp: 1740754249
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: Copying source file
I: copying [unifrac_1.3-4.dsc]
I: copying [./unifrac_1.3.orig.tar.gz]
I: copying [./unifrac_1.3-4.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./unifrac_1.3-4.dsc: unsupported subcommand
dpkg-source: info: extracting unifrac in unifrac-1.3
dpkg-source: info: unpacking unifrac_1.3.orig.tar.gz
dpkg-source: info: unpacking unifrac_1.3-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying remove-check-for-pkg-version.patch
dpkg-source: info: applying no_conda_prefix.patch
dpkg-source: info: applying relax_test_conditions.patch
dpkg-source: info: applying numpy.patch
dpkg-source: info: applying no_cython_in_binary_package.patch
dpkg-source: info: applying update_test_api_according_to_skbio.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/3514266/tmp/hooks/D02_print_environment starting
I: set
  BUILDDIR='/build/reproducible-path'
  BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
  BUILDUSERNAME='pbuilder1'
  BUILD_ARCH='amd64'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 '
  DISTRIBUTION='unstable'
  HOME='/root'
  HOST_ARCH='amd64'
  IFS=' 	
  '
  INVOCATION_ID='351fa01bf6304f73970e53b5745060c2'
  LANG='C'
  LANGUAGE='en_US:en'
  LC_ALL='C'
  MAIL='/var/mail/root'
  OPTIND='1'
  PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
  PBCURRENTCOMMANDLINEOPERATION='build'
  PBUILDER_OPERATION='build'
  PBUILDER_PKGDATADIR='/usr/share/pbuilder'
  PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
  PBUILDER_SYSCONFDIR='/etc'
  PPID='3514266'
  PS1='# '
  PS2='> '
  PS4='+ '
  PWD='/'
  SHELL='/bin/bash'
  SHLVL='2'
  SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.iDolYFQh/pbuilderrc_8l6u --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.iDolYFQh/b1 --logfile b1/build.log unifrac_1.3-4.dsc'
  SUDO_GID='111'
  SUDO_UID='106'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
  http_proxy='http://46.16.76.132:3128'
I: uname -a
  Linux ionos11-amd64 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/3514266/tmp/hooks/D02_print_environment finished
 -> Attempting to satisfy build-dependencies
 -> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: amd64
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder
 This package was created automatically by pbuilder to satisfy the
 build-dependencies of the package being currently built.
Depends: debhelper-compat (= 13), dh-exec, dh-sequence-python3, python3-all-dev, python3-setuptools, python3-numpy, cython3, libhdf5-dev, hdf5-helpers, python3-h5py, python3-biom-format, python3-skbio (>= 0.6.1), python3-iow, python3-pytest, libssu-dev (>= 1.4-2~)
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19779 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
 pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
  Package debhelper-compat is not installed.
 pbuilder-satisfydepends-dummy depends on dh-exec; however:
  Package dh-exec is not installed.
 pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however:
  Package dh-sequence-python3 is not installed.
 pbuilder-satisfydepends-dummy depends on python3-all-dev; however:
  Package python3-all-dev is not installed.
 pbuilder-satisfydepends-dummy depends on python3-setuptools; however:
  Package python3-setuptools is not installed.
 pbuilder-satisfydepends-dummy depends on python3-numpy; however:
  Package python3-numpy is not installed.
 pbuilder-satisfydepends-dummy depends on cython3; however:
  Package cython3 is not installed.
 pbuilder-satisfydepends-dummy depends on libhdf5-dev; however:
  Package libhdf5-dev is not installed.
 pbuilder-satisfydepends-dummy depends on hdf5-helpers; however:
  Package hdf5-helpers is not installed.
 pbuilder-satisfydepends-dummy depends on python3-h5py; however:
  Package python3-h5py is not installed.
 pbuilder-satisfydepends-dummy depends on python3-biom-format; however:
  Package python3-biom-format is not installed.
 pbuilder-satisfydepends-dummy depends on python3-skbio (>= 0.6.1); however:
  Package python3-skbio is not installed.
 pbuilder-satisfydepends-dummy depends on python3-iow; however:
  Package python3-iow is not installed.
 pbuilder-satisfydepends-dummy depends on python3-pytest; however:
  Package python3-pytest is not installed.
 pbuilder-satisfydepends-dummy depends on libssu-dev (>= 1.4-2~); however:
  Package libssu-dev is not installed.

Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
The following NEW packages will be installed:
  autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} comerr-dev{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-exec{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} hdf5-helpers{a} intltool-debian{a} krb5-multidev{a} libaec-dev{a} libaec0{a} libarchive-zip-perl{a} libblas3{a} libbrotli-dev{a} libbrotli1{a} libcom-err2{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libhdf5-310{a} libhdf5-cpp-310{a} libhdf5-dev{a} libhdf5-fortran-310{a} libhdf5-hl-310{a} libhdf5-hl-cpp-310{a} libhdf5-hl-fortran-310{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack3{a} liblapacke{a} liblbfgsb0{a} libldap-dev{a} libldap2{a} liblzf1{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libpsl-dev{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libssu-dev{a} libssu0{a} libssw0{a} libsz2{a} libtasn1-6{a} libtasn1-6-dev{a} libtmglib3{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} python3{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-biom-format{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-click{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-h5py{a} python3-h5py-serial{a} python3-hdmedians{a} python3-idna{a} python3-inflect{a} python3-iniconfig{a} python3-iow{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-natsort{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-patsy{a} python3-pkg-resources{a} python3-pluggy{a} python3-pytest{a} python3-pytz{a} python3-requests{a} python3-scipy{a} python3-setuptools{a} python3-skbio{a} python3-statsmodels{a} python3-statsmodels-lib{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-urllib3{a} python3-zipp{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  curl javascript-common krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc lynx publicsuffix python3-bottleneck python3-bs4 python3-colorama python3-cvxopt python3-html5lib python3-jinja2 python3-joblib python3-lxml python3-matplotlib python3-numba python3-numexpr python3-odf python3-openpyxl python3-pil python3-pooch python3-pygments python3-tables wget 
0 packages upgraded, 178 newly installed, 0 to remove and 0 not upgraded.
Need to get 108 MB of archives. After unpacking 462 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.2-1 [859 kB]
Get: 2 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB]
Get: 3 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.2-1 [2205 kB]
Get: 4 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.2-1 [27.1 kB]
Get: 5 http://deb.debian.org/debian unstable/main amd64 media-types all 12.0.0 [28.9 kB]
Get: 6 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main amd64 tzdata all 2025a-2 [259 kB]
Get: 8 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB]
Get: 9 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-6 [169 kB]
Get: 11 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.2-1 [1979 kB]
Get: 12 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.2-1 [745 kB]
Get: 13 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.2-1 [10.0 kB]
Get: 14 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.2-1 [28.1 kB]
Get: 15 http://deb.debian.org/debian unstable/main amd64 python3-numpy-dev amd64 1:2.2.3+ds-2+b1 [138 kB]
Get: 16 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.1-2 [160 kB]
Get: 17 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-17 [836 kB]
Get: 18 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.1-2 [2452 kB]
Get: 19 http://deb.debian.org/debian unstable/main amd64 python3-numpy amd64 1:2.2.3+ds-2+b1 [5081 kB]
Get: 20 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB]
Get: 21 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.4.1-1 [1427 kB]
Get: 22 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20241223 [164 kB]
Get: 23 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB]
Get: 24 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB]
Get: 25 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB]
Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB]
Get: 27 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB]
Get: 28 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB]
Get: 29 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-5 [92.4 kB]
Get: 30 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB]
Get: 31 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB]
Get: 32 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-5 [294 kB]
Get: 33 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB]
Get: 34 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB]
Get: 35 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-3 [862 kB]
Get: 36 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB]
Get: 37 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.2-1 [24.0 kB]
Get: 38 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.2-1 [55.7 kB]
Get: 39 http://deb.debian.org/debian unstable/main amd64 cython3 amd64 3.0.11+dfsg-2+b1 [2504 kB]
Get: 40 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 41 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-3 [539 kB]
Get: 42 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB]
Get: 43 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 44 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 45 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 46 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB]
Get: 47 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB]
Get: 48 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB]
Get: 49 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB]
Get: 50 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b2 [699 kB]
Get: 51 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB]
Get: 52 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 53 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 54 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB]
Get: 55 http://deb.debian.org/debian unstable/main amd64 dh-exec amd64 0.30 [25.6 kB]
Get: 56 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 57 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 58 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 59 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.2-1 [37.3 kB]
Get: 60 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 61 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 62 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 63 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.8.0-1 [222 kB]
Get: 64 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 65 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 66 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.8.0-1 [724 kB]
Get: 67 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20250108 [113 kB]
Get: 68 http://deb.debian.org/debian unstable/main amd64 hdf5-helpers amd64 1.14.5+repack-3 [26.6 kB]
Get: 69 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-4 [32.8 kB]
Get: 70 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-4 [80.9 kB]
Get: 71 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B]
Get: 72 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-4 [326 kB]
Get: 73 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-4 [138 kB]
Get: 74 http://deb.debian.org/debian unstable/main amd64 libgssrpc4t64 amd64 1.21.3-4 [60.0 kB]
Get: 75 http://deb.debian.org/debian unstable/main amd64 libkadm5clnt-mit12 amd64 1.21.3-4 [42.2 kB]
Get: 76 http://deb.debian.org/debian unstable/main amd64 libkdb5-10t64 amd64 1.21.3-4 [42.4 kB]
Get: 77 http://deb.debian.org/debian unstable/main amd64 libkadm5srv-mit12 amd64 1.21.3-4 [54.2 kB]
Get: 78 http://deb.debian.org/debian unstable/main amd64 krb5-multidev amd64 1.21.3-4 [126 kB]
Get: 79 http://deb.debian.org/debian unstable/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB]
Get: 80 http://deb.debian.org/debian unstable/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B]
Get: 81 http://deb.debian.org/debian unstable/main amd64 libaec-dev amd64 1.1.3-1+b1 [21.5 kB]
Get: 82 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB]
Get: 83 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB]
Get: 84 http://deb.debian.org/debian unstable/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB]
Get: 85 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8+b1 [19.9 kB]
Get: 86 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8+b1 [57.6 kB]
Get: 87 http://deb.debian.org/debian unstable/main amd64 libldap2 amd64 2.6.9+dfsg-1 [192 kB]
Get: 88 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB]
Get: 89 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.6.0-2 [64.8 kB]
Get: 90 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB]
Get: 91 http://deb.debian.org/debian unstable/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB]
Get: 92 http://deb.debian.org/debian unstable/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB]
Get: 93 http://deb.debian.org/debian unstable/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB]
Get: 94 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB]
Get: 95 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB]
Get: 96 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.12.1-3 [369 kB]
Get: 97 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.7-2+b1 [123 kB]
Get: 98 http://deb.debian.org/debian unstable/main amd64 libkrb5-dev amd64 1.21.3-4 [15.9 kB]
Get: 99 http://deb.debian.org/debian unstable/main amd64 libldap-dev amd64 2.6.9+dfsg-1 [307 kB]
Get: 100 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB]
Get: 101 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB]
Get: 102 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB]
Get: 103 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB]
Get: 104 http://deb.debian.org/debian unstable/main amd64 libnghttp3-dev amd64 1.6.0-2 [88.5 kB]
Get: 105 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB]
Get: 106 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-3 [329 kB]
Get: 107 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-3 [642 kB]
Get: 108 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB]
Get: 109 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.22.0-1+b1 [598 kB]
Get: 110 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.9-2 [455 kB]
Get: 111 http://deb.debian.org/debian unstable/main amd64 libgnutls-openssl27t64 amd64 3.8.9-2 [455 kB]
Get: 112 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.25.5-3 [208 kB]
Get: 113 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB]
Get: 114 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10.1-1 [1318 kB]
Get: 115 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.9-2 [1401 kB]
Get: 116 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB]
Get: 117 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB]
Get: 118 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.4.1-1 [2787 kB]
Get: 119 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB]
Get: 120 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-2 [365 kB]
Get: 121 http://deb.debian.org/debian unstable/main amd64 libcurl4-openssl-dev amd64 8.12.1-3 [483 kB]
Get: 122 http://deb.debian.org/debian unstable/main amd64 libexpat1-dev amd64 2.6.4-1 [158 kB]
Get: 123 http://deb.debian.org/debian unstable/main amd64 libhdf5-310 amd64 1.14.5+repack-3 [1344 kB]
Get: 124 http://deb.debian.org/debian unstable/main amd64 libhdf5-cpp-310 amd64 1.14.5+repack-3 [133 kB]
Get: 125 http://deb.debian.org/debian unstable/main amd64 libhdf5-fortran-310 amd64 1.14.5+repack-3 [111 kB]
Get: 126 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [69.3 kB]
Get: 127 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-fortran-310 amd64 1.14.5+repack-3 [43.9 kB]
Get: 128 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-cpp-310 amd64 1.14.5+repack-3 [24.4 kB]
Get: 129 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3.1 [168 kB]
Get: 130 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3.1 [292 kB]
Get: 131 http://deb.debian.org/debian unstable/main amd64 libjpeg-dev amd64 1:2.1.5-3.1 [72.0 kB]
Get: 132 http://deb.debian.org/debian unstable/main amd64 libhdf5-dev amd64 1.14.5+repack-3 [3165 kB]
Get: 133 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 134 http://deb.debian.org/debian unstable/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 135 http://deb.debian.org/debian unstable/main amd64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB]
Get: 136 http://deb.debian.org/debian unstable/main amd64 libtmglib3 amd64 3.12.1-2 [125 kB]
Get: 137 http://deb.debian.org/debian unstable/main amd64 liblapacke amd64 3.12.1-2 [381 kB]
Get: 138 http://deb.debian.org/debian unstable/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1+b2 [29.4 kB]
Get: 139 http://deb.debian.org/debian unstable/main amd64 liblzf1 amd64 3.6-4+b3 [10.1 kB]
Get: 140 http://deb.debian.org/debian unstable/main amd64 libpython3.13 amd64 3.13.2-1 [2151 kB]
Get: 141 http://deb.debian.org/debian unstable/main amd64 libpython3.13-dev amd64 3.13.2-1 [5005 kB]
Get: 142 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.13.2-1 [10.3 kB]
Get: 143 http://deb.debian.org/debian unstable/main amd64 libpython3-all-dev amd64 3.13.2-1 [1068 B]
Get: 144 http://deb.debian.org/debian unstable/main amd64 libssu0 amd64 1.4-3+b4 [154 kB]
Get: 145 http://deb.debian.org/debian unstable/main amd64 libssu-dev amd64 1.4-3+b4 [9892 B]
Get: 146 http://deb.debian.org/debian unstable/main amd64 libssw0 amd64 1.1-15+b2 [21.8 kB]
Get: 147 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.13.2-1 [1048 B]
Get: 148 http://deb.debian.org/debian unstable/main amd64 python3.13-dev amd64 3.13.2-1 [507 kB]
Get: 149 http://deb.debian.org/debian unstable/main amd64 python3-dev amd64 3.13.2-1 [26.1 kB]
Get: 150 http://deb.debian.org/debian unstable/main amd64 python3-all-dev amd64 3.13.2-1 [1068 B]
Get: 151 http://deb.debian.org/debian unstable/main amd64 python3-h5py-serial amd64 3.13.0-1+b1 [1065 kB]
Get: 152 http://deb.debian.org/debian unstable/main amd64 python3-h5py all 3.13.0-1 [15.0 kB]
Get: 153 http://deb.debian.org/debian unstable/main amd64 python3-click all 8.2.0-1 [98.7 kB]
Get: 154 http://deb.debian.org/debian unstable/main amd64 python3-dateutil all 2.9.0-3 [79.3 kB]
Get: 155 http://deb.debian.org/debian unstable/main amd64 python3-pytz all 2025.1-3 [150 kB]
Get: 156 http://deb.debian.org/debian unstable/main amd64 python3-tz all 2025.1-3 [4004 B]
Get: 157 http://deb.debian.org/debian unstable/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-8+b1 [4517 kB]
Get: 158 http://deb.debian.org/debian unstable/main amd64 python3-pandas all 2.2.3+dfsg-8 [3097 kB]
Get: 159 http://deb.debian.org/debian unstable/main amd64 python3-decorator all 5.1.1-5 [15.1 kB]
Get: 160 http://deb.debian.org/debian unstable/main amd64 python3-scipy amd64 1.14.1-4+b1 [17.1 MB]
Get: 161 http://deb.debian.org/debian unstable/main amd64 python3-biom-format amd64 2.1.16-1+b5 [151 kB]
Get: 162 http://deb.debian.org/debian unstable/main amd64 python3-certifi all 2025.1.31+ds-1 [9652 B]
Get: 163 http://deb.debian.org/debian unstable/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB]
Get: 164 http://deb.debian.org/debian unstable/main amd64 python3-charset-normalizer amd64 3.4.1-1+b1 [125 kB]
Get: 165 http://deb.debian.org/debian unstable/main amd64 python3-hdmedians amd64 0.14.2-6+b1 [121 kB]
Get: 166 http://deb.debian.org/debian unstable/main amd64 python3-idna all 3.10-1 [42.0 kB]
Get: 167 http://deb.debian.org/debian unstable/main amd64 python3-iniconfig all 1.1.1-2 [6396 B]
Get: 168 http://deb.debian.org/debian unstable/main amd64 python3-natsort all 8.0.2-2 [39.0 kB]
Get: 169 http://deb.debian.org/debian unstable/main amd64 python3-urllib3 all 2.3.0-1 [114 kB]
Get: 170 http://deb.debian.org/debian unstable/main amd64 python3-requests all 2.32.3+dfsg-4 [72.1 kB]
Get: 171 http://deb.debian.org/debian unstable/main amd64 python3-packaging all 24.2-1 [55.3 kB]
Get: 172 http://deb.debian.org/debian unstable/main amd64 python3-patsy all 1.0.1-1 [172 kB]
Get: 173 http://deb.debian.org/debian unstable/main amd64 python3-statsmodels-lib amd64 0.14.4+dfsg-1+b4 [1599 kB]
Get: 174 http://deb.debian.org/debian unstable/main amd64 python3-statsmodels all 0.14.4+dfsg-1 [4825 kB]
Get: 175 http://deb.debian.org/debian unstable/main amd64 python3-skbio amd64 0.6.2-4+b2 [1398 kB]
Get: 176 http://deb.debian.org/debian unstable/main amd64 python3-iow amd64 1.0.7-1+b3 [393 kB]
Get: 177 http://deb.debian.org/debian unstable/main amd64 python3-pluggy all 1.5.0-1 [26.9 kB]
Get: 178 http://deb.debian.org/debian unstable/main amd64 python3-pytest all 8.3.4-1 [250 kB]
Fetched 108 MB in 12s (9171 kB/s)
Preconfiguring packages ...
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Unpacking libpython3.13-minimal:amd64 (3.13.2-1) ...
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Unpacking python3.13-minimal (3.13.2-1) ...
Setting up libpython3.13-minimal:amd64 (3.13.2-1) ...
Setting up libexpat1:amd64 (2.6.4-1) ...
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Selecting previously unselected package python3-minimal.
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Unpacking python3-minimal (3.13.2-1) ...
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Unpacking tzdata (2025a-2) ...
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Unpacking readline-common (8.2-6) ...
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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64'
Unpacking libreadline8t64:amd64 (8.2-6) ...
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Unpacking python3 (3.13.2-1) ...
Selecting previously unselected package python3-numpy-dev:amd64.
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Unpacking python3-numpy-dev:amd64 (1:2.2.3+ds-2+b1) ...
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Unpacking libblas3:amd64 (3.12.1-2) ...
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Unpacking libmagic-mgc (1:5.45-3+b1) ...
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Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ...
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Current default time zone: 'Etc/UTC'
Local time is now:      Fri Feb 28 14:54:40 UTC 2025.
Universal Time is now:  Fri Feb 28 14:54:40 UTC 2025.
Run 'dpkg-reconfigure tzdata' if you wish to change it.

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update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode
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done.
Reading package lists...
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 -> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/unifrac-1.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S  > ../unifrac_1.3-4_source.changes
dpkg-buildpackage: info: source package unifrac
dpkg-buildpackage: info: source version 1.3-4
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Michael R. Crusoe <crusoe@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
 debian/rules clean
dh clean --buildsystem=pybuild
   dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:311: python3.13 setup.py clean 
Compiling unifrac/_api.pyx because it changed.
[1/1] Cythonizing unifrac/_api.pyx
running clean
removing '/build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build' (and everything under it)
'build/bdist.linux-x86_64' does not exist -- can't clean it
'build/scripts-3.13' does not exist -- can't clean it
   dh_autoreconf_clean -O--buildsystem=pybuild
   dh_clean -O--buildsystem=pybuild
 debian/rules binary
dh binary --buildsystem=pybuild
   dh_update_autotools_config -O--buildsystem=pybuild
   dh_autoreconf -O--buildsystem=pybuild
   dh_auto_configure -O--buildsystem=pybuild
I: pybuild base:311: python3.13 setup.py config 
Compiling unifrac/_api.pyx because it changed.
[1/1] Cythonizing unifrac/_api.pyx
running config
   dh_auto_build -O--buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3 setup.py build 
running build
running build_py
creating /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac
copying unifrac/__init__.py -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac
copying unifrac/_meta.py -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac
copying unifrac/_methods.py -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac
creating /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests
copying unifrac/tests/__init__.py -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests
copying unifrac/tests/test_methods.py -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests
copying unifrac/tests/test_api.py -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests
creating /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
copying unifrac/tests/data/t1.newick -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
copying unifrac/tests/data/crawford.tre -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
copying unifrac/tests/data/e2.biom -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
copying unifrac/tests/data/e1.biom -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
copying unifrac/tests/data/crawford.biom -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
copying unifrac/tests/data/t2.newick -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
copying unifrac/tests/data/test.faith.exp -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
copying unifrac/tests/data/crawford.group.tsv -> /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data
running build_ext
Compiling SSU
building 'unifrac._api' extension
creating build/temp.linux-x86_64-cpython-313/unifrac
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/unifrac-1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-error=incompatible-pointer-types -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c unifrac/_api.c -o build/temp.linux-x86_64-cpython-313/unifrac/_api.o
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from unifrac/_api.c:1255:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
unifrac/_api.c: In function '__pyx_f_7unifrac_4_api_construct_support_bptree':
unifrac/_api.c:27601:32: warning: assignment to '_Bool *' from incompatible pointer type '__pyx_t_7unifrac_4_api_bool *' {aka 'unsigned char *'} [-Wincompatible-pointer-types]
27601 |   __pyx_v_sp_bptree->structure = __pyx_v_structure;
      |                                ^
x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/unifrac-1.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-error=incompatible-pointer-types -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/unifrac/_api.o -L/usr/lib/x86_64-linux-gnu -lssu -o /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/_api.cpython-313-x86_64-linux-gnu.so
   dh_auto_test -O--buildsystem=pybuild
I: pybuild base:311: cd /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build; python3.13 -m pytest --pyargs unifrac
============================= test session starts ==============================
platform linux -- Python 3.13.2, pytest-8.3.4, pluggy-1.5.0
rootdir: /build/reproducible-path/unifrac-1.3
plugins: typeguard-4.4.2
collected 49 items

unifrac/tests/test_api.py ........................................       [ 81%]
unifrac/tests/test_methods.py .........                                  [100%]

=============================== warnings summary ===============================
unifrac/__init__.py:9
  /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/__init__.py:9: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html
    import pkg_resources

.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/test_api.py::FaithPDEdgeCasesTests::test_faith_pd_root_not_observed
  /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/test_api.py:814: FutureWarning: Series.__getitem__ treating keys as positions is deprecated. In a future version, integer keys will always be treated as labels (consistent with DataFrame behavior). To access a value by position, use `ser.iloc[pos]`
    self.assertAlmostEqual(actual[0], expected)

.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/test_api.py::FaithPDEdgeCasesTests::test_faith_pd_root_not_observed
  /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/test_api.py:820: FutureWarning: Series.__getitem__ treating keys as positions is deprecated. In a future version, integer keys will always be treated as labels (consistent with DataFrame behavior). To access a value by position, use `ser.iloc[pos]`
    self.assertAlmostEqual(actual[0], expected)

.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/test_api.py::FaithPDEdgeCasesTests::test_faith_pd_zero_branches_omitted
  /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/test_api.py:711: FutureWarning: Series.__getitem__ treating keys as positions is deprecated. In a future version, integer keys will always be treated as labels (consistent with DataFrame behavior). To access a value by position, use `ser.iloc[pos]`
    self.assertAlmostEqual(actual[0], expected)

-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
================== 49 passed, 4 warnings in 72.30s (0:01:12) ===================
   create-stamp debian/debhelper-build-stamp
   dh_testroot -O--buildsystem=pybuild
   dh_prep -O--buildsystem=pybuild
   dh_auto_install --destdir=debian/python3-unifrac/ -O--buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/unifrac-1.3/debian/python3-unifrac 
running install
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
running build
running build_py
running build_ext
Compiling SSU
running install_lib
creating /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages
creating /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/__init__.py -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/_meta.py -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac
creating /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/__init__.py -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/test_methods.py -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests
creating /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/__pycache__
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/__pycache__/test_api.cpython-313-pytest-8.3.4.pyc -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/__pycache__
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/__pycache__/test_methods.cpython-313-pytest-8.3.4.pyc -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/__pycache__
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/__pycache__
creating /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data/t1.newick -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data/crawford.tre -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data/e2.biom -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data/e1.biom -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data/crawford.biom -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data/t2.newick -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data/test.faith.exp -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/data/crawford.group.tsv -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/data
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/tests/test_api.py -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/_methods.py -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac
creating /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/__pycache__
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/__pycache__/_meta.cpython-313.pyc -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/__pycache__
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/__pycache__
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/__pycache__/_methods.cpython-313.pyc -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/__pycache__
copying /build/reproducible-path/unifrac-1.3/.pybuild/cpython3_3.13_unifrac/build/unifrac/_api.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac
byte-compiling /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/_meta.py to _meta.cpython-313.pyc
byte-compiling /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/test_methods.py to test_methods.cpython-313.pyc
byte-compiling /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/tests/test_api.py to test_api.cpython-313.pyc
byte-compiling /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac/_methods.py to _methods.cpython-313.pyc
running install_egg_info
running egg_info
creating unifrac.egg-info
writing unifrac.egg-info/PKG-INFO
writing dependency_links to unifrac.egg-info/dependency_links.txt
writing requirements to unifrac.egg-info/requires.txt
writing top-level names to unifrac.egg-info/top_level.txt
writing manifest file 'unifrac.egg-info/SOURCES.txt'
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
dependency unifrac/api.hpp won't be automatically included in the manifest: the path must be inside the project root
dependency unifrac/status_enum.hpp won't be automatically included in the manifest: the path must be inside the project root
reading manifest file 'unifrac.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files matching '*.pyc' found anywhere in distribution
warning: no previously-included files matching '*.pyo' found anywhere in distribution
warning: no previously-included files matching '.git' found anywhere in distribution
warning: no previously-included files matching '*.so' found anywhere in distribution
warning: no previously-included files matching '.*.swp' found anywhere in distribution
adding license file 'LICENSE'
writing manifest file 'unifrac.egg-info/SOURCES.txt'
Copying unifrac.egg-info to /build/reproducible-path/unifrac-1.3/debian/python3-unifrac/usr/lib/python3.13/dist-packages/unifrac-1.3.0.egg-info
Skipping SOURCES.txt
running install_scripts
   dh_installdocs -O--buildsystem=pybuild
   dh_installchangelogs -O--buildsystem=pybuild
   dh_python3 -O--buildsystem=pybuild
   debian/rules execute_after_dh_python3
make[1]: Entering directory '/build/reproducible-path/unifrac-1.3'
dh_numpy3
make[1]: Leaving directory '/build/reproducible-path/unifrac-1.3'
   dh_installsystemduser -O--buildsystem=pybuild
   dh_perl -O--buildsystem=pybuild
   dh_link -O--buildsystem=pybuild
   dh_strip_nondeterminism -O--buildsystem=pybuild
   dh_compress -O--buildsystem=pybuild
   dh_fixperms -O--buildsystem=pybuild
   dh_missing -O--buildsystem=pybuild
   dh_dwz -a -O--buildsystem=pybuild
   dh_strip -a -O--buildsystem=pybuild
   dh_makeshlibs -a -O--buildsystem=pybuild
   dh_shlibdeps -a -O--buildsystem=pybuild
   dh_installdeb -O--buildsystem=pybuild
   dh_gencontrol -O--buildsystem=pybuild
   dh_md5sums -O--buildsystem=pybuild
   dh_builddeb -O--buildsystem=pybuild
dpkg-deb: building package 'python3-unifrac' in '../python3-unifrac_1.3-4_amd64.deb'.
dpkg-deb: building package 'python3-unifrac-dbgsym' in '../python3-unifrac-dbgsym_1.3-4_amd64.deb'.
 dpkg-genbuildinfo --build=binary -O../unifrac_1.3-4_amd64.buildinfo
 dpkg-genchanges --build=binary -O../unifrac_1.3-4_amd64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
 dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: unmounting dev/ptmx filesystem
I: unmounting dev/pts filesystem
I: unmounting dev/shm filesystem
I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env 
I: removing directory /srv/workspace/pbuilder/3514266 and its subdirectories
I: Current time: Fri Feb 28 02:59:16 -12 2025
I: pbuilder-time-stamp: 1740754756
Fri Feb 28 14:59:17 UTC 2025  I: 1st build successful. Starting 2nd build on remote node ionos5-amd64.debian.net.
Fri Feb 28 14:59:17 UTC 2025  I: Preparing to do remote build '2' on ionos5-amd64.debian.net.
Fri Feb 28 15:01:34 UTC 2025  I: Deleting $TMPDIR on ionos5-amd64.debian.net.
Fri Feb 28 15:01:34 UTC 2025  I: unifrac_1.3-4_amd64.changes:
Format: 1.8
Date: Sun, 08 Sep 2024 12:56:59 +0200
Source: unifrac
Binary: python3-unifrac python3-unifrac-dbgsym
Architecture: amd64
Version: 1.3-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Michael R. Crusoe <crusoe@debian.org>
Description:
 python3-unifrac - high-performance phylogenetic diversity calculations
Closes: 1075607
Changes:
 unifrac (1.3-4) unstable; urgency=medium
 .
   * Team upload.
   * d/rules: add workaround for https://bugs.debian.org/1077205. Closes:
     #1075607
   * d/rules: move cleanup to d/clean
   * Switch to pytest, and using pybuild-autopkgtest
   * Standards-Version: 4.6.2 (routine-update)
Checksums-Sha1:
 1902cc663320cf2f1aa325d4c32ede50a6e1a6f6 540024 python3-unifrac-dbgsym_1.3-4_amd64.deb
 6988896949254a3adaa7e3957bf806fec504daef 150752 python3-unifrac_1.3-4_amd64.deb
 1b0df56ec6400ee2bf18674cf98d4850b5303926 9724 unifrac_1.3-4_amd64.buildinfo
Checksums-Sha256:
 80a59a241d0cdfb80ed1f1efc39532f442ba4122ff69f7d4547e0dd793269467 540024 python3-unifrac-dbgsym_1.3-4_amd64.deb
 e9dad3bfbf860b7cc54849eded519dcb65f4723b9069d1b038959be2131bcfd6 150752 python3-unifrac_1.3-4_amd64.deb
 1e72809282909c4e327f90f01e2eb3476bfcbce7c23686c234b3068487ab9b5c 9724 unifrac_1.3-4_amd64.buildinfo
Files:
 bbc652181d3447d20889e88d5b552b41 540024 debug optional python3-unifrac-dbgsym_1.3-4_amd64.deb
 a077c79adf2bbd6bdd3fee0a30d238ad 150752 python optional python3-unifrac_1.3-4_amd64.deb
 b2c610fc6a5a6355e4886dc0c468fe55 9724 science optional unifrac_1.3-4_amd64.buildinfo
Fri Feb 28 15:01:35 UTC 2025  I: diffoscope 289 will be used to compare the two builds:
Running as unit: rb-diffoscope-amd64_31-34367.service
# Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.iDolYFQh/unifrac_1.3-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.iDolYFQh/unifrac_1.3-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.iDolYFQh/unifrac_1.3-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.iDolYFQh/b1/unifrac_1.3-4_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.iDolYFQh/b2/unifrac_1.3-4_amd64.changes

## command (total time: 0.000s)
       0.000s      1 call     cmp (internal)

## has_same_content_as (total time: 0.000s)
       0.000s      1 call     diffoscope.comparators.binary.FilesystemFile

## main (total time: 0.003s)
       0.003s      2 calls    outputs
       0.000s      1 call     cleanup
Finished with result: success
Main processes terminated with: code=exited/status=0
Service runtime: 221ms
CPU time consumed: 223ms
Fri Feb 28 15:01:36 UTC 2025  I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists.
Fri Feb 28 15:01:36 UTC 2025  I: unifrac from unstable built successfully and reproducibly on amd64.
Fri Feb 28 15:01:37 UTC 2025  I: Submitting .buildinfo files to external archives:
Fri Feb 28 15:01:37 UTC 2025  I: Submitting 12K	b1/unifrac_1.3-4_amd64.buildinfo.asc
Fri Feb 28 15:01:38 UTC 2025  I: Submitting 12K	b2/unifrac_1.3-4_amd64.buildinfo.asc
Fri Feb 28 15:01:39 UTC 2025  I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit.
Fri Feb 28 15:01:39 UTC 2025  I: Done submitting .buildinfo files.
Fri Feb 28 15:01:39 UTC 2025  I: Removing signed unifrac_1.3-4_amd64.buildinfo.asc files:
removed './b1/unifrac_1.3-4_amd64.buildinfo.asc'
removed './b2/unifrac_1.3-4_amd64.buildinfo.asc'